Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Brown bear tissue full length transcriptome sequencing

PROVIDER: PRJNA727613 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR14437027_subreads.fastq.gz	Fastqsanger.gz
	SRR14437028_subreads.fastq.gz	Fastqsanger.gz
	SRR14437029_subreads.fastq.gz	Fastqsanger.gz
	SRR14437030_subreads.fastq.gz	Fastqsanger.gz
	SRR14437031_subreads.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Muscle transcriptome from active and hibernating brown bears (Ursus arctos)

Project description:Male and female 2- and 3-years old brown bear from the region of Tackasen (Sweden) were captured in summer and winter. Muscle biopsies from vastus lateralis were collected in february (hibernation state) and june (active period). Total RNA were extracted from muscle tissue and full transcriptome analysis (RNA Seq) were performed. Statistical analysis were performed to winter versus summer comparison from matched paired samples

2021-09-01 | GSE144856 | GEO

Project description:Full length transcriptome sequencing

| PRJNA893453 | ENA

Project description:Full-length transcriptome

| PRJNA859128 | ENA

Project description:Cell full-length transcriptome sequencing

| PRJNA931920 | ENA

Long-read transcriptome sequencing reveals abundant promoter diversity in distinct molecular subtypes of gastric cancer

Project description:Deregulated gene expression is a hallmark of cancer, however most studies to date have analyzed short-read RNA-sequencing data with inherent limitations. Here, we combine PacBio long-read isoform sequencing (Iso-Seq) and Illumina paired-end short read RNA sequencing to comprehensively survey the transcriptome of gastric cancer (GC), a leading cause of global cancer mortality. We performed full-length transcriptome analysis across 10 GC cell lines covering four major GC molecular subtypes (chromosomal unstable, Epstein-Barr positive, genome stable and microsatellite unstable). We identify 60,239 non-redundant full-length transcripts, of which >66% are novel compared to current transcriptome databases. Novel isoforms are more likely to be cell-line and subtype specific, expressed at lower levels with larger number of exons, with longer isoform/coding sequence lengths. Most novel isoforms utilize an alternate first exon, and compared to other alternative splicing categories are expressed at higher levels and exhibit higher variability. Collectively, we observe alternate promoter usage in 25% of detected genes, with the majority (84.2%) of known/novel promoter pairs exhibiting potential changes in their coding sequences. Mapping these alternate promoters to TCGA GC samples, we identify several cancer-associated isoforms, including novel variants of oncogenes. Tumor-specific transcript isoforms tend to alter protein coding sequences to a larger extent than other isoforms. Analysis of outcome data suggests that novel isoforms may impart additional prognostic information. Our results provide a rich resource of full-length transcriptome data for deeper studies of GC and other gastrointestinal malignancies.

2021-02-02 | PXD023373 | Pride

Project description:full length ONT transcriptome

| PRJNA743787 | ENA

Project description:full length ONT transcriptome

| PRJNA743816 | ENA

Project description:plastid full-length transcriptome

| PRJNA748959 | ENA

Project description:Blueberry full-length transcriptome

| PRJNA757138 | ENA

Project description:Nd full-length transcriptome

| PRJNA1112540 | ENA